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Table of Contents

May 2018; 28 (5)

Editorials

  • Scope note

    Genome Res. May 2018 28: x; Published in Advance April 12, 2018, doi:10.1101/gr.236893.118
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  • A statement about the publication describing genome sequencing of the Atacama skeleton

    Genome Res. May 2018 28: xiv; Published in Advance March 30, 2018, doi:10.1101/gr.237842.118
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Commentary

  • The Atacama skeleton

    • Garry Nolan and
    • Atul Butte
    Genome Res. May 2018 28: 607-608; Published in Advance March 30, 2018, doi:10.1101/gr.237834.118
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Perspective

  • Recognition of the polycistronic nature of human genes is critical to understanding the genotype-phenotype relationship

    • Marie A. Brunet,
    • Sébastien A. Levesque,
    • Darel J. Hunting,
    • Alan A. Cohen,
    • and Xavier Roucou
    Genome Res. May 2018 28: 609-624; Published in Advance April 6, 2018, doi:10.1101/gr.230938.117
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Research

  • Enduring epigenetic landmarks define the cancer microenvironment

    • Ruth Pidsley,
    • Mitchell G. Lawrence,
    • Elena Zotenko,
    • Birunthi Niranjan,
    • Aaron Statham,
    • Jenny Song,
    • Roman M. Chabanon,
    • Wenjia Qu,
    • Hong Wang,
    • Michelle Richards,
    • Shalima S. Nair,
    • Nicola J. Armstrong,
    • Hieu T. Nim,
    • Melissa Papargiris,
    • Preetika Balanathan,
    • Hugh French,
    • Timothy Peters,
    • Sam Norden,
    • Andrew Ryan,
    • John Pedersen,
    • James Kench,
    • Roger J. Daly,
    • Lisa G. Horvath,
    • Phillip Stricker,
    • Mark Frydenberg,
    • Renea A. Taylor,
    • Clare Stirzaker,
    • Gail P. Risbridger,
    • and Susan J. Clark
    Genome Res. May 2018 28: 625-638; Published in Advance April 12, 2018, doi:10.1101/gr.229070.117
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  • L1 retrotransposition is a common feature of mammalian hepatocarcinogenesis

    • Stephanie N. Schauer,
    • Patricia E. Carreira,
    • Ruchi Shukla,
    • Daniel J. Gerhardt,
    • Patricia Gerdes,
    • Francisco J. Sanchez-Luque,
    • Paola Nicoli,
    • Michaela Kindlova,
    • Serena Ghisletti,
    • Alexandre Dos Santos,
    • Delphine Rapoud,
    • Didier Samuel,
    • Jamila Faivre,
    • Adam D. Ewing,
    • Sandra R. Richardson,
    • and Geoffrey J. Faulkner
    Genome Res. May 2018 28: 639-653; Published in Advance April 11, 2018, doi:10.1101/gr.226993.117
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  • In-depth characterization of the cisplatin mutational signature in human cell lines and in esophageal and liver tumors

    • Arnoud Boot,
    • Mi Ni Huang,
    • Alvin W.T. Ng,
    • Szu-Chi Ho,
    • Jing Quan Lim,
    • Yoshiiku Kawakami,
    • Kazuaki Chayama,
    • Bin Tean Teh,
    • Hidewaki Nakagawa,
    • and Steven G. Rozen
    Genome Res. May 2018 28: 654-665; Published in Advance April 9, 2018, doi:10.1101/gr.230219.117

  • Mutational signatures of DNA mismatch repair deficiency in C. elegans and human cancers

    • Bettina Meier,
    • Nadezda V. Volkova,
    • Ye Hong,
    • Pieta Schofield,
    • Peter J. Campbell,
    • Moritz Gerstung,
    • and Anton Gartner
    Genome Res. May 2018 28: 666-675; Published in Advance April 10, 2018, doi:10.1101/gr.226845.117
    OPEN ACCESS ARTICLE

  • Integrated analysis sheds light on evolutionary trajectories of young transcription start sites in the human genome

    • Cai Li,
    • Boris Lenhard,
    • and Nicholas M. Luscombe
    Genome Res. May 2018 28: 676-688; Published in Advance April 4, 2018, doi:10.1101/gr.231449.117
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  • HNRNPA1 promotes recognition of splice site decoys by U2AF2 in vivo

    • Jonathan M. Howard,
    • Hai Lin,
    • Andrew J. Wallace,
    • Garam Kim,
    • Jolene M. Draper,
    • Maximilian Haeussler,
    • Sol Katzman,
    • Masoud Toloue,
    • Yunlong Liu,
    • and Jeremy R. Sanford
    Genome Res. May 2018 28: 689-698; Published in Advance April 12, 2018, doi:10.1101/gr.229062.117

  • In vitro iCLIP-based modeling uncovers how the splicing factor U2AF2 relies on regulation by cofactors

    • F.X. Reymond Sutandy,
    • Stefanie Ebersberger,
    • Lu Huang,
    • Anke Busch,
    • Maximilian Bach,
    • Hyun-Seo Kang,
    • Jörg Fallmann,
    • Daniel Maticzka,
    • Rolf Backofen,
    • Peter F. Stadler,
    • Kathi Zarnack,
    • Michael Sattler,
    • Stefan Legewie,
    • and Julian König
    Genome Res. May 2018 28: 699-713; Published in Advance April 11, 2018, doi:10.1101/gr.229757.117

Methods

  • Double insertion of transposable elements provides a substrate for the evolution of satellite DNA

    • Michael P. McGurk and
    • Daniel A. Barbash
    Genome Res. May 2018 28: 714-725; Published in Advance March 27, 2018, doi:10.1101/gr.231472.117

  • Optical mapping reveals a higher level of genomic architecture of chained fusions in cancer

    • Eva K.F. Chan,
    • Daniel L. Cameron,
    • Desiree C. Petersen,
    • Ruth J. Lyons,
    • Benedetta F. Baldi,
    • Anthony T. Papenfuss,
    • David M. Thomas,
    • and Vanessa M. Hayes
    Genome Res. May 2018 28: 726-738; Published in Advance April 4, 2018, doi:10.1101/gr.227975.117
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  • Sequential regulatory activity prediction across chromosomes with convolutional neural networks

    • David R. Kelley,
    • Yakir A. Reshef,
    • Maxwell Bileschi,
    • David Belanger,
    • Cory Y. McLean,
    • and Jasper Snoek
    Genome Res. May 2018 28: 739-750; Published in Advance March 27, 2018, doi:10.1101/gr.227819.117
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  • taxMaps: comprehensive and highly accurate taxonomic classification of short-read data in reasonable time

    • André Corvelo,
    • Wayne E. Clarke,
    • Nicolas Robine,
    • and Michael C. Zody
    Genome Res. May 2018 28: 751-758; Published in Advance March 27, 2018, doi:10.1101/gr.225276.117

Resource

  • Hackathons as a means of accelerating scientific discoveries and knowledge transfer

    • Amel Ghouila,
    • Geoffrey Henry Siwo,
    • Jean-Baka Domelevo Entfellner,
    • Sumir Panji,
    • Katrina A. Button-Simons,
    • Sage Zenon Davis,
    • Faisal M. Fadlelmola,
    • The DREAM of Malaria Hackathon Participants,
    • Michael T. Ferdig,
    • and Nicola Mulder
    Genome Res. May 2018 28: 759-765; Published in Advance April 12, 2018, doi:10.1101/gr.228460.117
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Corrigenda

  • Corrigendum: Detecting differential copy number variation between groups of samples

    • Craig B. Lowe,
    • Nicelio Sanchez-Luege,
    • Timothy R. Howes,
    • Shannon D. Brady,
    • Rhea R. Daugherty,
    • Felicity C. Jones,
    • Michael A. Bell,
    • and David M. Kingsley
    Genome Res. May 2018 28: 766.1; doi:10.1101/gr.237370.118
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  • Corrigendum: Evolutionary expansion of DNA hypomethylation in the mammalian germline genome

    • Jianghan Qu,
    • Emily Hodges,
    • Antoine Molaro,
    • Pascal Gagneux,
    • Matthew D. Dean,
    • Gregory J. Hannon,
    • and Andrew D. Smith
    Genome Res. May 2018 28: 766.2; doi:10.1101/gr.236885.118
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  • Corrigendum: A systematic comparison reveals substantial differences in chromosomal versus episomal encoding of enhancer activity

    • Fumitaka Inoue,
    • Martin Kircher,
    • Beth Martin,
    • Gregory M. Cooper,
    • Daniela M. Witten,
    • Michael T. McManus,
    • Nadav Ahituv,
    • and Jay Shendure
    Genome Res. May 2018 28: 766.3; doi:10.1101/gr.237321.118
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|

This Issue

May 2018; 28 (5)
Cover
  1. Editorials
  2. Commentary
  3. Perspective
  4. Research
  5. Methods
  6. Resource
  7. Corrigenda

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